SMTL ID : 1h9w.1

Native Dioclea Guianensis seed lectin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

7 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: E.8, D.10, D.19, H.24 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.8, A:D.10, A:D.19, A:H.24, H2O.6, H2O.6 MN.3: 2 residues within 4Å: Chain A: S.125 Chain B: H.127 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:S.125, B:H.127, H2O.6, H2O.6, H2O.6 MN.4: 3 residues within 4Å: Chain A: N.124, H.180 Chain B: S.134 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.180, H2O.6, H2O.6 MN.5: 4 residues within 4Å: Chain B: E.8, D.10, D.19, H.24 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.8, B:D.10, B:D.19, B:H.24, H2O.11 MN.7: 3 residues within 4Å: Chain A: H.127, S.129 Chain B: S.125 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.127, B:S.125, H2O.11, H2O.11 MN.8: 2 residues within 4Å: Chain B: N.124, H.180 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.180, H2O.11, H2O.11 MN.10: 1 residues within 4Å: Chain B: H.51 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.51, H2O.11, H2O.11, H2O.11

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.10, Y.12, N.14, D.19 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.10, A:D.10, A:D.19, H2O.1, H2O.6 CA.6: 4 residues within 4Å: Chain B: D.10, Y.12, N.14, D.19 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.10, B:D.10, B:Y.12, B:D.19, H2O.6 CA.9: 2 residues within 4Å: Chain A: E.87, E.183 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.87, A:E.87, A:E.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wah, D.A. et al., Crystal Structure of Native and Cd/Cd-Substituted Dioclea Guianensis Seed Lectin. A Novel Manganese-Binding Site and Structural Basis of Dimer-Tetramer Association. J.Mol.Biol. (2001)

Release Date

2001-03-23

Peptides

SEED LECTIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

SEED LECTIN